GgaINT0045592 @ galGal3
Intron Retention
Gene
ENSGALG00000002509 | COL5A2
Description
NA
Coordinates
chr7:541368-541592:+
Coord C1 exon
chr7:541368-541421
Coord A exon
chr7:541422-541538
Coord C2 exon
chr7:541539-541592
Length
117 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
ACTTCAAGTTTTATTTTAAGGGT
3' ss Score
5.74
Exon sequences
Seq C1 exon
GGTCTTCCTGGTCCAATAGGCCCAATGGGTCCAGCAGGGTCCACTGGAGAAAAG
Seq A exon
GTAAACAGACTTTCATGCTGTTCCCTACTCAAGTTTCTTAATATCATCATGCCTTATTGGCACTTTTTCTACTCATCAGATAAGTTACTGGGAACTGACTTCAAGTTTTATTTTAAG
Seq C2 exon
GGTGAACCAGGTCCTCGAGGTCTTGTTGGTCCTCCCGGTTCTCGTGGAAACCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002509:ENSGALT00000003954:38
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(23.9=100),PF0139113=Collagen=FE(21.0=100)
A:
NA
C2:
PF0139113=Collagen=PD(5.6=22.2),PF0139113=Collagen=FE(21.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTCCTGGTCCAATAGGCCC
R:
AGGGTTTCCACGAGAACCGG
Band lengths:
106-223
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]